Non-Coding RNA Search

Ss1.1-Emb1-C0005193_H18.5

Sequence:


               
               GACTTTTCAGATATATGAAGAAGTGGATTTGGAAAGCCATTGATCACTGAAGAACATTAG
TAGGTGGGGAATTTAATTTCTGTCTTCCAAATGACATTTTTTTGGCTCTGCTCAAGTGGT
CATGGGCAGAGCACCATTATTGAACTCTTGCAATATGGCTCCGATTTTTCTGCACAAGTT
TCCTTGCACAGTTGGGCCAACGATTTCTTTTTTTTTCAGGATTCACTGCCTGGGGTATCC
CACTATATATCTCACTTATGATGTAGTGGTGCTTGAAAACACTCATCTCGTTAGCTGAAC
TTTATTATTCTAGTCTAAGGTTTTTGATACTATTCATATTATGATCTTTTTAGAGACAAT
CAGTAGTATTTGCAGCAAAGTACCGAAGGGTCTCTTTAAGCCTGCAACCACACATATTTT
TTTTGTTTTTCTGGGTAAGAGGAGGTAGATAAGGCAGATGCTCCTTAAAGGGGAACAAGT
TGAGATATCTATGTCATCTCTATTTAAAAAGCGAGAGGACATGGTAGCTGGTGTTTTACA
CTGTGCTTCAGAATATTCCTGGTTGGATTTTCCTGGCTGAGCAACAGCCCAACTCTTAGG
TAGATCCTGTATGGTGGAGGTGGAGATGTGGCGTTGGGTCTATAGCAGCAGATAGGCAGA
AATACCCAGAGAGTAAGAAAACACTTGCATAAAAAGAGGGAAATCCATAAGGAGATTATA
GCTCTGAAACAAAATATATAGGAGCTGAAGGTCAATTATGGCAGAAATCAGCTGAAGGAA
GAAACAGGATAAGTGAGGATAACAGCCAAGCACAATCTGTCACTCCAGTATGGCCAACCA
AATTCAATACAGGGAATGTGATCAGCTGACGAGAGGGTCCAAGAAGGCCCCATTGCGTTG
CCAGCACACTAGACCATTTCAGAACCTACTCTAGGGTTGGTTGCTGAGTCATCCCAGACA
AACTCTAGTGATGTCCTCTTAAGCCTGGAACACACTGTCTGTGGTTGTGTCCTGACTTGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GACTTTTCAGATATATGAAGAAGTGGATTTGGAAAGCCATTGATCACTGAAGAACATTAG
TAGGTGGGGAATTTAATTTCTGTCTTCCAAATGACATTTTTTTGGCTCTGCTCAAGTGGT
CATGGGCAGAGCACCATTATTGAACTCTTGCAATATGGCTCCGATTTTTCTGCACAAGTT
TCCTTGCACAGTTGGGCCAACGATTTCTTTTTTTTTCAGGATTCACTGCCTGGGGTATCC
CACTATATATCTCACTTATGATGTAGTGGTGCTTGAAAACACTCATCTCGTTAGCTGAAC
TTTATTATTCTAGTCTAAGGTTTTTGATACTATTCATATTATGATCTTTTTAGAGACAAT
CAGTAGTATTTGCAGCAAAGTACCGAAGGGTCTCTTTAAGCCTGCAACCACACATATTTT
TTTTGTTTTTCTGGGTAAGAGGAGGTAGATAAGGCAGATGCTCCTTAAAGGGGAACAAGT
TGAGATATCTATGTCATCTCTATTTAAAAAGCGAGAGGACATGGTAGCTGGTGTTTTACA
CTGTGCTTCAGAATATTCCTGGTTGGATTTTCCTGGCTGAGCAACAGCCCAACTCTTAGG
TAGATCCTGTATGGTGGAGGTGGAGATGTGGCGTTGGGTCTATAGCAGCAGATAGGCAGA
AATACCCAGAGAGTAAGAAAACACTTGCATAAAAAGAGGGAAATCCATAAGGAGATTATA
GCTCTGAAACAAAATATATAGGAGCTGAAGGTCAATTATGGCAGAAATCAGCTGAAGGAA
GAAACAGGATAAGTGAGGATAACAGCCAAGCACAATCTGTCACTCCAGTATGGCCAACCA
AATTCAATACAGGGAATGTGATCAGCTGACGAGAGGGTCCAAGAAGGCCCCATTGCGTTG
CCAGCACACTAGACCATTTCAGAACCTACTCTAGGGTTGGTTGCTGAGTCATCCCAGACA
AACTCTAGTGATGTCCTCTTAAGCCTGGAACACACTGTCTGTGGTTGTGTCCTGACTTGA

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               136-243, - strand, RNAz p=0.997801
               

               
               479-574, + strand, RNAz p=0.927201

Predicted RNA structure(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               136-243, - strand, RNAz p=0.997801
               

               
               479-574, + strand, RNAz p=0.927201

Similar Transcript(s): 2 entry(ies)

More info

Similar Transcript(s): 2 entry(ies)

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               140-206, 4085739 BARC 9BOV Bos taurus cDNA clone 9BOV2_N04 5', mRNA sequence 
(gb|CK970029.1|), blast E-value=5e-19, identity=95.52% 
               

               
               140-206, LB02225.CR_J03 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE242155.1|), 
blast E-value=5e-19, identity=95.52%

Similar Transcript(s): 2 entry(ies)

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PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               140-206, 4085739 BARC 9BOV Bos taurus cDNA clone 9BOV2_N04 5', mRNA sequence 
(gb|CK970029.1|), blast E-value=5e-19, identity=95.52% 
               

               
               140-206, LB02225.CR_J03 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE242155.1|), 
blast E-value=5e-19, identity=95.52%

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               48-437, gnl|bosTau2|chr24 (44579814-44579420)
               

               
               48-437, gnl|Hg17|chr18 (57628275-57627848)
               

               
               48-437, gnl|Mm7|chr1 (105178108-105177569)
               


               
               439-877, gnl|bosTau2|chr24 (44579185-44578754)
               

               
               439-877, gnl|Hg17|chr18 (57627610-57627173)

Aligned organism(s): 5 entry(ies)

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PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               48-437, gnl|bosTau2|chr24 (44579814-44579420)
               

               
               48-437, gnl|Hg17|chr18 (57628275-57627848)
               

               
               48-437, gnl|Mm7|chr1 (105178108-105177569)
               


               
               439-877, gnl|bosTau2|chr24 (44579185-44578754)
               

               
               439-877, gnl|Hg17|chr18 (57627610-57627173)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               cki (0.165235)
               

               
               hyp (0.142837)
               

               
               pla (0.133672)

Expressed library(ies): 3 entry(ies)

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Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               cki (0.165235)
               

               
               hyp (0.142837)
               

               
               pla (0.133672)

	136-243, - strand, RNAz p=0.997801
	479-574, + strand, RNAz p=0.927201

	140-206, 4085739 BARC 9BOV Bos taurus cDNA clone 9BOV2_N04 5', mRNA sequence (gb\|CK970029.1\|), blast E-value=5e-19, identity=95.52%
	140-206, LB02225.CR_J03 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb\|EE242155.1\|), blast E-value=5e-19, identity=95.52%

	48-437, gnl\|bosTau2\|chr24 (44579814-44579420)
	48-437, gnl\|Hg17\|chr18 (57628275-57627848)
	48-437, gnl\|Mm7\|chr1 (105178108-105177569)

	439-877, gnl\|bosTau2\|chr24 (44579185-44578754)
	439-877, gnl\|Hg17\|chr18 (57627610-57627173)